ArticleBMC genomics2026
Comparative genome analysis of Pseudomonas chlororaphis strains reveals biosynthetic diversity underlying plant growth promotion and soil health improvement.
Article in BMC genomics, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
backgroundThe growing need for sustainable farming methods has led to increased efforts to understand plant-beneficial microbes that can serve as alternatives to chemical fertilizers and pesticides. Among these, bacteria from the Pseudomonas chlororaphis group have emerged as particularly promising candidates due to their metabolic versatility and ability to produce a diverse arsenal of bioactive compounds.
resultsIn this study, we conducted an extensive comparative genomic analysis of two Pseudomonas chlororaphis strains, FS-2 (endophytic) and RP-4 (rhizoplane-associated), to explore their plant growth-promoting and biocidal capacities. Whole-genome analysis using antiSMASH and functional annotation tools identified several biosynthetic gene clusters (BGCs) involved in the production of secondary metabolites, such as phenazines, pyoverdine, pyrrolnitrin, hydrogen cyanide, and the cyclic lipopeptide white line-inducing principle (WLIP). Some additional clusters with low similarity to known references, including arylpolyenes, butyrolactones, and resorcinol derivatives, were also observed within these genomes, indicating the ability to produce uncharacterized bioactive compounds. Genes for the biosynthesis of plant growth-promoting features including indole-3-acetic acid, siderophore, biofilm formation, solubilization of organic compounds, and stress adaption were also present in both genomes. Additionally, bacteriocin-like operons pyocins and colicins were also present in the genomes of FS-2 and RP-4. Average nucleotide identity analysis indicated a high level of conservation (99.58% ANI) between FS-2 and RP-4, however, differences in the genome and the presence of strain-specific biosynthetic gene clusters (BGCs) indicate adaptive evolution.
conclusionsThe overall comparative genomic insights into P. chlororaphis strains FS-2 and RP-4 indicate their metabolic and plant-beneficial characteristics for rhizosphere competence and their use as biological control agents.
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